|
| Status |
Public on Mar 19, 2015 |
| Title |
Input l_VC |
| Sample type |
SRA |
| |
|
| Source name |
Embryonic day 12.5 vertebral column of wild type mice
|
| Organism |
Mus musculus |
| Characteristics |
tissue: E12.5 vertebral column
strain: CD1
ChIP: S-pepetide in wild type embryo [S-Pepetide - Bethyl laboratories (A-190-134A)]
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Standard ChIP DNA extraction methods as described here-( Schmidt D, Wilson MD, Spyrou C, Brown GD, Hadfield J, Odom DT: ChIP-seq: using high-throughput sequencing to discover protein-DNA interactions. Methods 2009, 48(3):240-248.). Standard Illumina single end read library was prepared as per as manufacturer's instruction to be sequenced on a GAII sequencer (14 round amplification cycle was used)
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina Genome Analyzer II |
| |
|
| Description |
Background control for S-peeptide tagged Bapx1 ChIP. Vertebral column from wild type E12.5 embryos were pulled down with S-peptide antibody
|
| Data processing |
The sequenced tags were aligned to mouse genome (mm9) and the peak detection was done using MACS.
Genome Build: mm9
CME206-6cols-Input-VC.tags.txt
CME206-input.tags.wig
|
| |
|
| Submission date |
Mar 21, 2012 |
| Last update date |
May 15, 2019 |
| Contact name |
Thomas Lufkin |
| E-mail(s) |
tlufkin@clarkson.edu
|
| Organization name |
Clarkson University
|
| Department |
Biology
|
| Lab |
Stem Cells & Regenerative Medicine
|
| Street address |
8 Clarkson Avenue
|
| City |
Potsdam |
| State/province |
NY |
| ZIP/Postal code |
13699 |
| Country |
USA |
| |
|
| Platform ID |
GPL9250 |
| Series (2) |
| GSE35877 |
Genome wide binding and expression profiling defines a Bapx1-Sox9 axis in vertebral column, Gut, Spleen and limbs in developing mouse embryo. |
| GSE36672 |
In vivo and in vitro Genome wide binding (ChIP-Seq) of Bapx1 and Sox9 |
|
| Relations |
| SRA |
SRX130588 |
| BioSample |
SAMN00829310 |
